I install eular in ubuntu8.10 x64, it runs well assembling sample data.
command is : ${EUSRC}/assembly/Assemble.pl reads.fa 25
Then i use my 454 seqs, it has been clean ahead.
command is: ${EUSRC}/assembly/Assemble.pl 454reads.fa 25
But the result looks have some mistakes. two assemblied seqs like that:
>RUX0000005
TGAATGTGTTCATGATGGTTGGGGGGTTGCTGTACTTGTTGGAGTG
>RUX0000006
TGAATGTGTTCATGATGGTTGGGGGTTGCTGTACTTGTTGGAGTG
I think they are the same, but they are not assembly to one seq using euler-sr.
Who can tell me what the problem I have?
Thank you very much.
PS: I also want to know how to check the quality of the contig file like cap3 or phrap results.
command is : ${EUSRC}/assembly/Assemble.pl reads.fa 25
Then i use my 454 seqs, it has been clean ahead.
command is: ${EUSRC}/assembly/Assemble.pl 454reads.fa 25
But the result looks have some mistakes. two assemblied seqs like that:
>RUX0000005
TGAATGTGTTCATGATGGTTGGGGGGTTGCTGTACTTGTTGGAGTG
>RUX0000006
TGAATGTGTTCATGATGGTTGGGGGTTGCTGTACTTGTTGGAGTG
I think they are the same, but they are not assembly to one seq using euler-sr.
Who can tell me what the problem I have?
Thank you very much.
PS: I also want to know how to check the quality of the contig file like cap3 or phrap results.
Comment